Postmenopause as a key factor in the composition of the Endometrial Cancer Microbiome (ECbiome)

From BugSigDB
Reviewed Marked as Reviewed by Atrayees on 2023-7-25
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
URI
Authors
Walsh DM, Hokenstad AN, Chen J, Sung J, Jenkins GD, Chia N, Nelson H, Mariani A, Walther-Antonio MRS
Journal
Scientific reports
Year
2019
Incidence rates for endometrial cancer (EC) are rising, particularly in postmenopausal and obese women. Previously, we showed that the uterine and vaginal microbiome distinguishes patients with EC from those without. Here, we sought to examine the impact of patient factors (such as menopause status, body mass index, and vaginal pH) in the microbiome in the absence of EC and how these might contribute to the microbiome signature in EC. We find that each factor independently alters the microbiome and identified postmenopausal status as the main driver of a polymicrobial network associated with EC (ECbiome). We identified Porphyromas somerae presence as the most predictive microbial marker of EC and we confirm this using targeted qPCR, which could be of use in detecting EC in high-risk, asymptomatic women. Given the established pathogenic behavior of P. somerae and accompanying network in tissue infections and ulcers, future investigation into their role in EC is warranted.

Experiment 1


Reviewed Marked as Reviewed by ChiomaBlessing on 2024-2-29

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): Lwaldron, WikiWorks, ChiomaBlessing

Subjects

Location of subjects
United States of America
Host species Species from which microbiome was sampled. Contact us to have more species added.
Homo sapiens
Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
Lower part of vagina Caudal vagina,Lower third of vagina,Lower vagina,Perineal part of vagina,Sinus vagina,Vagina lower part,Vaginal bulb,Lower part of vagina,lower part of vagina
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Postmenopausal Postmenopausal,postmenopausal
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Pre-menopausal patients
Group 1 name Corresponds to the case (exposed) group for case-control studies
Post-menopausal patients
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Post-menopausal patients without Endometrial cancer
Group 0 sample size Number of subjects in the control (unexposed) group
49
Group 1 sample size Number of subjects in the case (exposed) group
14
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
2 weeks

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
V3-V5
Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
Illumina

Statistical Analysis

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
relative abundances
Statistical test
Wald Test
Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
0.1
MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
Yes
Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
obesity, vaginal pH

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
increased
Richness Number of species
increased

Signature 2

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-2-29

Curated date: 2021/01/10

Curator: Fatima Zohra

Revision editor(s): WikiWorks, ChiomaBlessing

Source: Figure 2 + Table S1

Description: Bacterial OTUs differentially enriched among Post-menopausal patients without endometrial cancer compared to Pre-menopausal patients

Abundance in Group 1: increased abundance in Post-menopausal patients

NCBI Quality ControlLinks
Atopobium
Bacteroides
Blautia
Campylobacter
Clostridium
Dialister
Faecalibacterium
Gallicola
Luteococcus
Peptococcus
Peptoniphilus
Porphyromonas
Tepidimicrobium
Tessaracoccus
Varibaculum
Anaerococcus
unclassified Bacillota
Alloscardovia
Actinomyces
Moryella

Revision editor(s): WikiWorks, ChiomaBlessing

Experiment 2


Reviewed Marked as Reviewed by ChiomaBlessing on 2024-2-29

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Atrayees, ChiomaBlessing

Differences from previous experiment shown

Subjects

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Endometrial cancer cancer of endometrium,endometrial Ca,endometrial cancer,endometrial neoplasm,endometrium cancer,malignant endometrial neoplasm,malignant endometrium neoplasm,malignant neoplasm of endometrium,neoplasm of endometrium,primary malignant neoplasm of endometrium,tumor of endometrium,Endometrial cancer
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Benign
Group 1 name Corresponds to the case (exposed) group for case-control studies
Endometrial cancer
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Patients undergoing hysterectomy for endometrial cancer
Group 0 sample size Number of subjects in the control (unexposed) group
67
Group 1 sample size Number of subjects in the case (exposed) group
57

Lab analysis

Statistical Analysis

Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
body mass index, menopause, vaginal pH

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
unchanged
Richness Number of species
unchanged

Signature 1

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-2-29

Curated date: 2021/01/10

Curator: Fatima Zohra

Revision editor(s): WikiWorks, ChiomaBlessing

Source: Figure 4 + Table S2

Description: Bacterial OTUs differentially enriched among patients with endometrial cancer compared to Benign patients

Abundance in Group 1: decreased abundance in Endometrial cancer

NCBI Quality ControlLinks
Lactobacillus

Revision editor(s): WikiWorks, ChiomaBlessing

Signature 2

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-2-29

Curated date: 2021/01/10

Curator: Fatima Zohra

Revision editor(s): WikiWorks, ChiomaBlessing

Source: Figure 4 + Table S2

Description: Bacterial OTUs differentially enriched among patients with endometrial cancer compared to Benign patients

Abundance in Group 1: increased abundance in Endometrial cancer

NCBI Quality ControlLinks
Actinomyces
Arcanobacterium
Campylobacter
Finegoldia
Fusobacterium
Gallicola
Lactobacillus
Peptococcus
Peptoniphilus
Porphyromonas
Prevotella
Varibaculum
Anaerococcus

Revision editor(s): WikiWorks, ChiomaBlessing